pre.cluster crash

mothur bugs
1

I’m using 1.29.2 and pre.cluster crashes, giving the following error:

[ERROR]: Your name file contains 0 valid sequences, and your groupfile contains 150793, please correct.

/******************************************/
Running command: unique.seqs(fasta=vb3.shhh.trim.unique.good.filter.unique.precluster.fasta, name=vb3.shhh.trim.unique.good.filter.unique.precluster.names)
[ERROR]: vb3.shhh.trim.unique.good.filter.unique.precluster.fasta is blank, aborting.
Using vb3.shhh.trim.unique.good.filter.unique.fasta as input file for the fasta parameter.
[ERROR]: vb3.shhh.trim.unique.good.filter.unique.precluster.names is blank, aborting.
/******************************************/

I noticed earlier in the process that unique.seqs is not producing the expected file names, e.g. output file names were:

Output File Names:
vb3.shhh.trim.names
vb3.shhh.trim.unique.fasta

I was expecting vb3.shhh.trim.unique.names

Are these problems linked?

Many thanks in advance.

2

Could you send your logfile and input files to mothur.bugs@gmail.com?

3

Was there ever a resolution to this problem, I am having the same one, with the same discrepancy in name file generation with the names file

4

ok, resolved it. didn’t use the right names file somewhere upstream in the pipeline, mucks up everything downstream.